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[194122_at] Zinc finger, C4 type (two domains) ; Ligand-binding domain of nuclear hormone receptors

Description H27C11.1 /REP_DB=WormBase Gene ID /WP=CE19941 /GEN=nhr-97 /TR=Q9XXL0 /GB=CAA18549.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains) ; Ligand-binding domain of nuclear hormone receptors
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 06      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 60      6grp_total > 07      4grp_total > 46      6grp_highest_sub > De      6grp_cgc > 11      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 575
1 2 3 4 range
A 770.8
(3)
P 		288.3
(-2)
P 		244.1
(-2.5)
P 		195.6
(-3)
P 		575
B 679.7
(3)
P 		308.6
(-1.8)
P 		217
(-3)
P 		283.5
(-2.1)
P 		463
C 587.2
(3)
P 		373.7
(-0.7)
P 		255
(-2.7)
P 		240.4
(-3)
P 		347
avr 679.2
(3) 		323.5
(-1.8) 		238.7
(-3) 		239.8
(-3) 		441

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 549
1 2 3 4 5 6 range
A 600.5
(3)
P 		285.9
(-1.5)
P 		251.1
(-2)
P 		307.1
(-1.2)
P 		192.8
(-2.8)
P 		177.8
(-3)
P 		423
B 602.8
(3)
P 		346.1
(-0.5)
P 		291
(-1.3)
P 		211.8
(-2.4)
P 		167.8
(-3)
P 		173.9
(-2.9)
P 		435
C 711.5
(3)
P 		426.7
(-0.1)
P 		256.8
(-2)
P 		283.2
(-1.7)
P 		162.2
(-3)
P 		197.9
(-2.6)
P 		549
avr 638.3
(3) 		352.9
(-0.7) 		266.3
(-1.8) 		267.4
(-1.8) 		174.3
(-3) 		183.2
(-2.9) 		464
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 252
1 2 3 4 range
A 280.7
(3)
P 		62.6
(-2.2)
P 		63.8
(-2.2)
P 		28.6
(-3)
P 		252
B 216.8
(3)
P 		76.2
(-2.1)
P 		50.3
(-3)
P 		60.4
(-2.6)
P 		167
C 194.4
(3)
P 		107.5
(-0.4)
P 		88.9
(-1.1)
P 		40.5
(-3)
P 		154
avr 230.6
(3) 		82.1
(-1.8) 		67.7
(-2.2) 		43.2
(-3) 		187

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 220
1 2 3 4 5 6 range
A 110.7
(3)
P 		101.7
(2.2)
P 		54.7
(-2)
P 		77.9
(0.1)
P 		58.2
(-1.7)
P 		43.3
(-3)
P 		67
B 209.7
(3)
P 		115.2
(-0.7)
P 		70.7
(-2.4)
P 		56.1
(-3)
P 		68.2
(-2.5)
P 		64.8
(-2.7)
P 		154
C 263.7
(3)
P 		130.2
(-0.8)
P 		65.4
(-2.6)
P 		56.9
(-2.9)
P 		52.5
(-3)
P 		66.3
(-2.6)
P 		211
avr 194.7
(3) 		115.7
(-0.5) 		63.6
(-2.8) 		63.6
(-2.8) 		59.6
(-2.9) 		58.1
(-3) 		137
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194122_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9321
Sequence Type Exemplar sequence
Representative Public ID H27C11.1 NCBI
Target Description H27C11.1 /REP_DB=WormBase Gene ID /WP=CE19941 /GEN=nhr-97 /TR=Q9XXL0 /GB=CAA18549.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains) ; Ligand-binding domain of nuclear hormone receptors
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_069337(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069337 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-97) (nhr-97) mRNA, complete cds. 11/11 A 
SNAP00000001070 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9761234:9763533:1 11/11 None
GENEFINDER00000001071 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9759817:9763533:1 11/11 None
H27C11.1 ENSEMBL cdna:known chromosome:CEL140:IV:9757622:9764468:1 gene:H27C11.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:9759822-9763539(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains) ; Ligand-binding domain of nuclear hormone receptors
Gene Symbol nhr-97
Ensembl H27C11.1
Entrez Gene 177810 Entrez gene
SwissProt Q9BJK5 EMBL-EBI
WormBase CE31027 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAD36480 Hypothetical protein H27C11.1 [Caenorhabditis elegans] emb|CAA18549.2| Hypothetical protein H27C11.1 [Caenorhabditis elegans] ref|NP_501738.2| Nuclear Hormone Receptor family member (nhr-97) [Caenorhabditis elegans] gb|AAK17982.1| nuclear receptor NHR-97 [Caenorhabditis elegans] sp|Q9BJK5|NHR97_CAEEL Nuclear hormone receptor family member nhr-97 0.0
blast T23126 hypothetical protein H27C11.1 - Caenorhabditis elegans 0.0
blast CAE69012 Hypothetical protein CBG15006 [Caenorhabditis briggsae] 0.0
blast CAD36480 Hypothetical protein H27C11.1 [Caenorhabditis elegans] emb|CAA18549.2| Hypothetical protein H27C11.1 [Caenorhabditis elegans] ref|NP_501738.2| Nuclear Hormone Receptor family member (nhr-97) [Caenorhabditis elegans] gb|AAK17982.1| nuclear receptor NHR-97 [Caenorhabditis elegans] sp|Q9BJK5|NHR97_CAEEL Nuclear hormone receptor family member nhr-97 1.0E-174
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.8E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.5E-27
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-17
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.8E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.0E-25
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000001071 1 21-40
Sequence
Target Sequence 
>C. ELEGANS:194122_AT
gtcaatcttcatttggtccttctgatacacaaattcccttttgtaacaactcttttcttt
ctgctcattgtataccaccatccacatcgtttcttcgttggaaaacaattcaatcgttga
acaaatgggcacaacgtgagcttaagccactctgtttgagagccaaggaaattgtgctgc
taaaggctttgattgctctcaatccagatgccaacggtctatcctcagatgctgaatcgt
caatccgaatgctccgtgaacgtgttcacaccgctcttttccagttgctcatggagaatt
cagagccaattactgctgcttctcgtcttgctcaaatacttcttctcattccacaacttt
ccttaatgggagttgatgtaattgaacaagtaaaagttcgaaacactttcaacaagcgat
cagcatttggcgagggactcctcttctggcaactatacgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCAATCTTCATTTGGTCCTTCTGA 643 463 809 Antisense
GGTCCTTCTGATACACAAATTCCCT 81 503 823 Antisense
TTGTAACAACTCTTTTCTTTCTGCT 631 707 849 Antisense
TCTTTCTGCTCATTGTATACCACCA 394 615 864 Antisense
CCATCCACATCGTTTCTTCGTTGGA 608 271 886 Antisense
GATTGCTCTCAATCCAGATGCCAAC 524 433 999 Antisense
CAACGGTCTATCCTCAGATGCTGAA 14 189 1020 Antisense
CAATCCGAATGCTCCGTGAACGTGT 127 181 1049 Antisense
CAGAGCCAATTACTGCTGCTTCTCG 566 205 1109 Antisense
GTCTTGCTCAAATACTTCTTCTCAT 213 469 1133 Antisense
ACTCCTCTTCTGGCAACTATACGGA 478 99 1245 Antisense
Sequence Source Affymetrix Proprietary Database